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WO2015009844A3 - Mirror bisulfite analysis - Google Patents

Mirror bisulfite analysis Download PDF

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Publication number
WO2015009844A3
WO2015009844A3 PCT/US2014/046876 US2014046876W WO2015009844A3 WO 2015009844 A3 WO2015009844 A3 WO 2015009844A3 US 2014046876 W US2014046876 W US 2014046876W WO 2015009844 A3 WO2015009844 A3 WO 2015009844A3
Authority
WO
WIPO (PCT)
Prior art keywords
5hmc
hydroxymethylcytosine
genome
quantitation
bisulfite
Prior art date
Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
Ceased
Application number
PCT/US2014/046876
Other languages
French (fr)
Other versions
WO2015009844A2 (en
Inventor
Xi-Yu JIA
Xueguang SUN
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
Zymo Research Corp
Original Assignee
Zymo Research Corp
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by Zymo Research Corp filed Critical Zymo Research Corp
Priority to EP14826682.8A priority Critical patent/EP3022321B1/en
Publication of WO2015009844A2 publication Critical patent/WO2015009844A2/en
Publication of WO2015009844A3 publication Critical patent/WO2015009844A3/en
Anticipated expiration legal-status Critical
Ceased legal-status Critical Current

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Classifications

    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6844—Nucleic acid amplification reactions
    • C12Q1/6858—Allele-specific amplification

Landscapes

  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Organic Chemistry (AREA)
  • Engineering & Computer Science (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Health & Medical Sciences (AREA)
  • Biophysics (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Immunology (AREA)
  • Microbiology (AREA)
  • Molecular Biology (AREA)
  • Analytical Chemistry (AREA)
  • Physics & Mathematics (AREA)
  • Biotechnology (AREA)
  • Biochemistry (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • General Health & Medical Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)

Abstract

Reagents and methods for detection and quantitation of DNA hydroxymethylcytosine (5hmC) are provided. Specifically, genome-wide and loci analysis methods are provided that utilizes methylated primers coupled with bisulfite-sequencing for detecting and quantitating 5hmC levels in the genome. This methodology also allows quantitation of 5hmC levels at a single CpG. This method, was used to map and quantitate 5hmC sites of neurons from the human brain. This novel method can determine the exact location and abundance of 5hmC, which with bioinformatic analysis utilizing software and computers can facilitate our understanding of how modified cytosines such as hydroxymethylcytosine play a role in regulating gene expression in the brain.
PCT/US2014/046876 2013-07-16 2014-07-16 Mirror bisulfite analysis Ceased WO2015009844A2 (en)

Priority Applications (1)

Application Number Priority Date Filing Date Title
EP14826682.8A EP3022321B1 (en) 2013-07-16 2014-07-16 Mirror bisulfite analysis

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US201361847058P 2013-07-16 2013-07-16
US61/847,058 2013-07-16

Publications (2)

Publication Number Publication Date
WO2015009844A2 WO2015009844A2 (en) 2015-01-22
WO2015009844A3 true WO2015009844A3 (en) 2015-08-06

Family

ID=52346839

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2014/046876 Ceased WO2015009844A2 (en) 2013-07-16 2014-07-16 Mirror bisulfite analysis

Country Status (2)

Country Link
EP (1) EP3022321B1 (en)
WO (1) WO2015009844A2 (en)

Families Citing this family (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN105506084B (en) * 2015-12-28 2019-02-15 安诺优达基因科技(北京)有限公司 The rapidly and efficiently methylolated method of detection genomic DNA and kit
WO2020041449A1 (en) * 2018-08-21 2020-02-27 Zymo Research Corporation Methods and compositions for tracking sample quality
CN110747254B (en) * 2019-10-29 2021-09-07 西安交通大学 A kind of detection method of single cell 5-hmC
EP4435118A3 (en) * 2019-11-06 2025-01-15 University Health Network Synthetic spike-in controls for cell-free medip sequencing and methods of using same

Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20120064521A1 (en) * 2010-09-09 2012-03-15 James Yen Detection of dna hydroxymethylation
WO2012054730A1 (en) * 2010-10-22 2012-04-26 Oslo Universitetssykehus Hf Methods and kits for detection of 5-hydroxymethylcytosine
WO2013090588A1 (en) * 2011-12-13 2013-06-20 Oslo Universitetssykehus Hf Methods and kits for detection of methylation status

Family Cites Families (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20070092883A1 (en) * 2005-10-26 2007-04-26 De Luwe Hoek Octrooien B.V. Methylation specific multiplex ligation-dependent probe amplification (MS-MLPA)
WO2011127136A1 (en) * 2010-04-06 2011-10-13 University Of Chicago Composition and methods related to modification of 5-hydroxymethylcytosine (5-hmc)
US20140178873A1 (en) * 2011-03-04 2014-06-26 Andreas Brachmann Novel methods for detecting hydroxymethylcytosine

Patent Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20120064521A1 (en) * 2010-09-09 2012-03-15 James Yen Detection of dna hydroxymethylation
WO2012054730A1 (en) * 2010-10-22 2012-04-26 Oslo Universitetssykehus Hf Methods and kits for detection of 5-hydroxymethylcytosine
WO2013090588A1 (en) * 2011-12-13 2013-06-20 Oslo Universitetssykehus Hf Methods and kits for detection of methylation status

Non-Patent Citations (2)

* Cited by examiner, † Cited by third party
Title
MULTIPLICOM.: "Universal PCR for MiSeq Sequencing", 26 March 2013 (2013-03-26), XP008185902, Retrieved from the Internet <URL:http://www.google.com/url?sa=t&rct=j&q=&esrc=s&source=web&cd=1&ved=0CB4QFjAA&url=http%3A%2F%2Fwww.multiplicom.com%2Fsites%2Fdefault%2Ffiles%2FIFU018v1_IFU_PartII_MID_MSq_0_0.pdf&ei=KVtiVJmcFa2ligLC8oHICw&usg=AFQjCNG93RoU5P7PJsEfLRI20MpJTpqnRw&sig2=XTqKpRoguMjCgv582qZOEw&bvm=bv.79189006,d.cGE> [retrieved on 20141110] *
ZYMO RESEARCH., 5-HMC GLUOSYLTRANSFERASE, 27 May 2013 (2013-05-27), XP008182717, Retrieved from the Internet <URL:https://web.archive.org/web/20130527093249/http://www.zymoresearch.com/epigenetics/dna-hydroxymethylation/5-hmc-glucosyltransferase/5-hmc-glucosyltransferase> [retrieved on 20131110] *

Also Published As

Publication number Publication date
EP3022321A4 (en) 2017-01-18
EP3022321B1 (en) 2021-01-13
EP3022321A2 (en) 2016-05-25
WO2015009844A2 (en) 2015-01-22

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